MmuINT0078005 @ mm10
Intron Retention
Gene
ENSMUSG00000025877 | Hk3
Description
hexokinase 3 [Source:MGI Symbol;Acc:MGI:2670962]
Coordinates
chr13:55007072-55008774:-
Coord C1 exon
chr13:55008675-55008774
Coord A exon
chr13:55007256-55008674
Coord C2 exon
chr13:55007072-55007255
Length
1419 bp
Sequences
Splice sites
5' ss Seq
TCGGTAAGG
5' ss Score
10.48
3' ss Seq
TGGCCCCGGCCTGTCTACAGGAA
3' ss Score
8.1
Exon sequences
Seq C1 exon
GCAGTGGAGCTGAATGTGGTTGCCATTGTCAATGACACGGTGGGGACCATGATGTCCTGTGGCTATGATGATCCCCGTTGTGAGATGGGCCTCATTGTCG
Seq A exon
GTAAGGAGGGTCTTGCCCTCTGTGCTCCTAGTGCCTGATAATTCATTGCCTTTCATTAATTCCTTAGGTTGGACCTTTCTCTGACCTTGGAGATATGGGATTCTTTCTGTATGACCCAGTTGAGTTCTGGGCCATTGTACTGAGCTAGAAGTCTGGAACTGAAGCATTTAGTCCATTTTAGCCATTAAGTCATTGGATCTTTCCAAGCCTCAGCTTGCTCATTTGGTAAACGCATCTCTATGAGACTGGCTGTGTTGCTCCCATCTGTCTGACCTTGGGTAACTCACTAGAGTCTGATCCTTCACTTCAAGGTATGGCATGGCAACACCTACGTCAAGAGGTTCAGAAAACCGAATGAGAAGGGGCCCAGGCAGAGTACACTGCCCGGGTCATAGTGTCTACTCAGTGTTTGAAATGGGAGGGCATGACTGGTGGATGACTCCCGGAATGTTCTTTAGATGTCAAGAGTCTAAGACATAAGCAAGCTCTTACCCTGGGGCTATCCGGCGTCTGGATAAAGGGGCCAGGAGACACAGAAAGGAAAAGGAACTCTATCTTCTCAGAACCGAGTATCCAGAGGGGATTAAGCCCGGAACAGCCTGTGGCAACATACAGCTAACTCTGAGTGCACACAGAAGGGCAGACAGACTATGATCAGACAGGAATTAGTCCTGAACAAGTGGGAACTGGAGCTTGGAAGGAAGCTTCTCTTAGAGCGTGTGGTGGCCTGTCATGGATGGGAGACTTTTGAACATAGGCTCTGACACTAGTGGGTGCTTAGGAGAGGTGTAAACCGTTAGAGAAATCCCAGGCGGGGCTATCAAGGAGCTCACGACTCAGAGCTGGAGACACGCAGAGAGGAGGGAATGTCTTTTCCTCTCTATTTTTCCTATATCACTCCCTCTGTGCTGCTTTTCCGAGTCTCGTAGGCAAAAAGCCTCCTGTGCCCCAGTGCTCCCATGATGCTCTTGTTTCTGATTCTATGAGGACCTGTGGAAGTACTATCAGAGAAAGCCCTCCACTGCCTAACTTCTGGCCAGACCGGGGGGGGGGGGGCTCCCTGTGCCAGCGTTCAGTCTCCTCAGCTCCTGGCTCACTCCTGTCATTTCGATTAAAGCCATTCTTGGCAGACAGGAAACTTCAGCATCTTACCAGCATCAGAATGGAGCCACACCCATGCCCCCAGAGATGAGCTTTCAGGTAGCACAGGAGACTCACTAATGTCGGCTCTGGTAGGGAGCGCAGAGGGAGTTCTGAGGAAGGGAGACCAGGAGCAGGGACTGGTTTTGAACGTGGGGAAATAGGAGAAGGAGTCTGAATTTTGTTGTTTTGGTGTGGGAATGACTCCTAAGGGCTTTGTCTGTATCAGTAAGCAGCGCCCCCCCCCCCCCCCATCCCTTGGCCCCGGCCTGTCTACAG
Seq C2 exon
GAACCGGCACCAACGCCTGTTACATGGAAGAGCTCCGCAATGTGGCAAGTGTGCCTGGGGACTCGGGCCTCATGTGCATCAACATGGAGTGGGGTGCCTTTGGGGATGATGGCTCACTGGGCACACTCAGCACCCGCTTTGACACCAGTGTGGACCAGGCATCCATCAATCCAGGCAAACAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000025877:ENSMUST00000052949:15
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0034916=Hexokinase_1=PD(11.5=67.6),PF0372711=Hexokinase_2=PU(3.3=23.5)
A:
NA
C2:
PF0372711=Hexokinase_2=FE(25.4=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGTGGAGCTGAATGTGGTTGC
R:
GTTTGCCTGGATTGATGGATGC
Band lengths:
278-1697
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Ribosome-engaged transcriptomes of neuronal types
- Neural differentiation time course
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types